RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8867
(355 letters)
>1syy_A Ribonucleoside-diphosphate reductase beta chain; DIIRON, oxygen
activation, iron coupled radical, immune EVAS
replication, oxidoreductase; 1.70A {Chlamydia
trachomatis} SCOP: a.25.1.2 PDB: 4d8g_A 4d8f_A 2ani_A
Length = 346
Score = 451 bits (1162), Expect = e-160
Identities = 189/341 (55%), Positives = 251/341 (73%), Gaps = 3/341 (0%)
Query: 15 NSFERINKINKQIINGH-TDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKN 73
+R+N +K+++N + DVNQLVP KY WAW+ YL+ CAN+W+P EI M +DIELWK+
Sbjct: 8 GKQKRVNLNSKRLVNCNQVDVNQLVPIKYKWAWEHYLNGCANNWLPTEIPMGKDIELWKS 67
Query: 74 PIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHA 133
L+E+ERR++ NLGFFSTA+SL NNIVL ++H+T PE RQYLLRQAFEEA+HTH
Sbjct: 68 D-RLSEDERRVILLNLGFFSTAESLVGNNIVLAIFKHVTNPEARQYLLRQAFEEAVHTHT 126
Query: 134 YQYIVESLGLDELEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLI 193
+ YI ESLGLDE EIFNAY+E +I+ KD+F + + D F+T + + Q+ +K+L+
Sbjct: 127 FLYICESLGLDEKEIFNAYNERAAIKAKDDFQMEITGKVLDPNFRTDSVEGLQEFVKNLV 186
Query: 194 VFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENP 253
+ IMEG+FFY GFV IL+ RQNKMIG E YQYILRDE++H NFGIDLIN IK ENP
Sbjct: 187 GYYIIMEGIFFYSGFVMILSFHRQNKMIGIGEQYQYILRDETIHLNFGIDLINGIKEENP 246
Query: 254 NLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIK 313
+WT E +EI +L +A++LE YA+D +P+GILGL F Y++ IA+ R+++IG+K
Sbjct: 247 EIWTPELQQEIVELIKRAVDLEIEYAQDCLPRGILGLRASMFIDYVQHIADRRLERIGLK 306
Query: 314 QIFPYERNPFPWMSEMIHIKKESNFFETRVMEYQSGGTLDW 354
I+ +NPFPWMSE I + KE NFFETRV+EYQ +L W
Sbjct: 307 PIYH-TKNPFPWMSETIDLNKEKNFFETRVIEYQHAASLTW 346
>2rcc_A Ribonucleoside-diphosphate reductase subunit beta; NP_241368.1,
putative class I ribonucleotide reductase,
ribonucleotide reductase; HET: MSE PGE PG4; 1.90A
{Bacillus halodurans c-125}
Length = 346
Score = 387 bits (995), Expect = e-135
Identities = 90/341 (26%), Positives = 163/341 (47%), Gaps = 17/341 (4%)
Query: 18 ERINKINKQIING-HTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIG 76
+ + I+NG ++V +++WA+ Y + AN W P EINM D + +
Sbjct: 13 TTASNASTGILNGKSSNVLNWDDVRFSWAYPLYKNMLANFWTPFEINMSHDAKQFPT--- 69
Query: 77 LTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQY 136
LTE E+ K+ +G + DS+ + + ++T + +F+E +H +Y Y
Sbjct: 70 LTETEQEAFKKIIGLLAFLDSVQ-TDYSMRAAEYLTDSSLAALMSVLSFQEVVHNQSYSY 128
Query: 137 IVESLG--LDELEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIV 194
++ SL + EIF + +++++EF+I + D + L+S+ V
Sbjct: 129 VLSSLVPKATQDEIFEYWKHDDVLKERNEFIIDGYEKFVD-------NPTPKTFLESI-V 180
Query: 195 FACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPN 254
+ I+EGL FY GF L R KM+ +S + YI RDE +H ++ + +E P
Sbjct: 181 YDVILEGLNFYSGFAFFYNLARNQKMVSTSTMINYINRDEQLHVYLFTNIFKELLVEFPE 240
Query: 255 LWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQ 314
L T E ++ +KA +LE + + I G+N + ++Y+ FIAN R Q+G+++
Sbjct: 241 LNTEETKTFVKTTLMKAADLEKDWFRYIIGDKIPGINPEDMETYISFIANKRAVQLGMEK 300
Query: 315 IFP-YERNPFPWMSEMIHIKKE-SNFFETRVMEYQSGGTLD 353
+P + NP W+ + S+FFE + +Y +
Sbjct: 301 PYPEIKHNPMKWIRAYEDVNSGKSDFFEQKSRQYAKVSADN 341
>1mxr_A Ribonucleotide reductase R2; radical protein, DI iron,
oxidoreductase; 1.42A {Escherichia coli} SCOP: a.25.1.2
PDB: 1jpr_A 1jqc_A 1xik_A 3uus_E* 1yfd_A 1piy_A 1r65_A
2xof_A* 1biq_B* 1rsv_A 1piz_A 1piu_A 1pim_A 1rsr_A
1biq_A* 1rib_A 1mrr_A 1rnr_A* 1pj0_A 1pj1_A ...
Length = 375
Score = 377 bits (971), Expect = e-131
Identities = 76/357 (21%), Positives = 153/357 (42%), Gaps = 26/357 (7%)
Query: 18 ERINKINKQIING-HTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIG 76
+ +++ + + G +V + KY+ + W P+E+++ RD ++
Sbjct: 8 TKNDQLKEPMFFGQPVNVARYDQQKYDIFEKLIEKQLSFFWRPEEVDVSRDRIDYQA--- 64
Query: 77 LTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQY 136
L E E+ + NL + + DS+ + + I+ PE ++ AF E IH+ +Y +
Sbjct: 65 LPEHEKHIFISNLKYQTLLDSIQGRSPNVALLPLISIPELETWVETWAFSETIHSRSYTH 124
Query: 137 IVESLGLDELEIFNAYHEIKSIRDKDEFLIPFIDVLTDL----------------KFKTG 180
I+ ++ D +F+ + I+ + E + + D L ++ K T
Sbjct: 125 IIRNIVNDPSVVFDDIVTNEQIQKRAEGISSYYDELIEMTSYWHLLGEGTHTVNGKTVTV 184
Query: 181 NTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNF 240
+ + +K L ++ +E + FYV F A + M G++++ + I RDE++H
Sbjct: 185 SLRELKKKLYLCLMSVNALEAIRFYVSFACSFAFAERELMEGNAKIIRLIARDEALHLTG 244
Query: 241 GIDLINTIKMENPNL----WTTEFCKEIEQLFLKAIELEYYYAEDTMPKG-ILGLNVKTF 295
++N ++ + E +E LF++A + E +A+ G ++GLN
Sbjct: 245 TQHMLNLLRSGADDPEMAEIAEECKQECYDLFVQAAQQEKDWADYLFRDGSMIGLNKDIL 304
Query: 296 KSYLRFIANCRMKQIGIKQIFPYERNPFPWMSEMIHIKKE-SNFFETRVMEYQSGGT 351
Y+ +I N RM+ +G+ F NP PW++ + E V Y G
Sbjct: 305 CQYVEYITNIRMQAVGLDLPFQTRSNPIPWINTWLVSDNVQVAPQEVEVSSYLVGQI 361
>4a58_A Ribonucleoside-diphosphate reductase small chain; oxidoreductase,
epstein-BARR virus, R2 subunit; 1.68A {Human herpesvirus
4} PDB: 4a5c_A 4a5d_A 4a5e_A 4a5f_A 4a5h_A 4a5i_A 4a5j_A
Length = 324
Score = 375 bits (964), Expect = e-130
Identities = 68/321 (21%), Positives = 117/321 (36%), Gaps = 28/321 (8%)
Query: 37 LVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERRLVKRNLGFFSTAD 96
L + + + N W I + +D K L E + K F + A+
Sbjct: 27 LYVRDHEGFACLTVETHRNRWFAAHIVLTKDCGCLKL---LNERDLEFYKFLFTFLAMAE 83
Query: 97 SLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGLDELEIFNAYHE-- 154
L NI + + Y Q E +H Y I+ L + NAY E
Sbjct: 84 KLVNFNIDE-LVTSFESHDIDHYYTEQKAMENVHGETYANILNMLFDGDRAAMNAYAEAI 142
Query: 155 --IKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEGLFFYVGFVQIL 212
++++ K +L + L + ++VF +EG+FF F I
Sbjct: 143 MTDEALQAKISWLRDKVA-------------AAVTLPEKILVFLL-IEGIFFISSFYSIA 188
Query: 213 ALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEFCKEIEQLFLKAI 272
L + M G YI RDE +H L N++ + I++LF A+
Sbjct: 189 LLRVRGLMPGICLANNYISRDELLHTRAASLLYNSMTAKADRPRA----TWIQELFRTAV 244
Query: 273 ELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFPYERNPFPWMSEMIHI 332
E+E + + +G+ ++V+ K +L A+ + IG ++ P +
Sbjct: 245 EVETAFI-EARGEGVTLVDVRAIKQFLEATADRILGDIGQAPLYG-TPPPKDCPLTYMTS 302
Query: 333 KKESNFFETRVMEYQSGGTLD 353
K++NFFE +Y D
Sbjct: 303 IKQTNFFEQESSDYTMLVVDD 323
>3n37_A Ribonucleoside-diphosphate reductase 2 subunit BE; ribonucleotide
reductase, four-helix bundle, dimanganese CLU
oxidoreductase; 1.65A {Escherichia coli} PDB: 3n38_A
3n39_B* 3n3a_B* 3n3b_B* 1r2f_A 2bq1_I* 2r2f_A
Length = 319
Score = 351 bits (902), Expect = e-121
Identities = 60/322 (18%), Positives = 117/322 (36%), Gaps = 26/322 (8%)
Query: 39 PFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERRLVKRNLGFFSTADSL 98
+ + + +N W+P+++ + DI W+ LT E++L R + D+L
Sbjct: 13 KISDDKDLEVWNRLTSNFWLPEKVPLSNDIPAWQT---LTVVEQQLTMRVFTGLTLLDTL 69
Query: 99 AANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGLDE--LEIFNAYHEIK 156
P L +F EA+H +Y I +L + + E
Sbjct: 70 QNVIGAPSLMPDALTPHEEAVLSNISFMEAVHARSYSSIFSTLCQTKDVDAAYAWSEENA 129
Query: 157 SIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGR 216
++ K + + D L K + + +E FY GF +
Sbjct: 130 PLQRKAQIIQQHYR-------------GDDPLKK--KIASVFLESFLFYSGFWLPMYFSS 174
Query: 217 QNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEFCKEIEQLFLKAIELEY 276
+ K+ +++L + I+RDE++H + + E L L+ + E
Sbjct: 175 RGKLTNTADLIRLIIRDEAVHGYYIGYKYQKNMEKISLGQREELKSFAFDLLLELYDNEL 234
Query: 277 YYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFP---YERNPFPWMSEMIHIK 333
Y ++ + +VK +L + AN + +G + +FP E NP + +
Sbjct: 235 QYTDELYAETPWADDVKA---FLCYNANKALMNLGYEPLFPAEMAEVNPAILAALSPNAD 291
Query: 334 KESNFFETRVMEYQSGGTLDWE 355
+ +FF Y G ++ E
Sbjct: 292 ENHDFFSGSGSSYVMGKAVETE 313
>2p1i_A Ribonucleotide reductase, small chain; F222 twinning, plasmodb
PY03671, S genomics consortium, SGC, oxidoreductase;
2.70A {Plasmodium yoelii yoelii}
Length = 349
Score = 351 bits (901), Expect = e-120
Identities = 84/355 (23%), Positives = 169/355 (47%), Gaps = 23/355 (6%)
Query: 1 MSIKLNNKKKTLKINSFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQ 60
+S + K+ + + F++ + N++I+N ++ L P Y W+ Y + A+ W +
Sbjct: 7 ISKSASFSKQEKEFSDFQKSKESNEKILNKESNRFTLHPIMYPEVWNFYKKAEASFWTAE 66
Query: 61 EINMQRDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYL 120
EI++ D++ ++ L E+ +K L FF+ +D + N+ R + E +++
Sbjct: 67 EIDLSSDLKDFEK---LNVNEKHFIKHVLAFFAASDGIVLENLASKFLREVEIIEAKKFY 123
Query: 121 LRQAFEEAIHTHAYQYIVESLGLDELEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTG 180
Q E IH+ Y ++++ DE E N +H I++I
Sbjct: 124 SFQIAVENIHSETYSLLIDNYIKDEKERLNLFHAIENIPAIKNK-----------ALWAA 172
Query: 181 NTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNF 240
ND IV +EG+ F F I +QNK+ G + + I RDE +H +F
Sbjct: 173 KWINDTNSFAERIVANACVEGILFSGSFCAIFWFKKQNKLHGLTFSNELISRDEGLHTDF 232
Query: 241 GIDLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLR 300
+ + ++ + P ++ + +A+E+E + +++P ++G+N + Y+
Sbjct: 233 NCLIYSLLENKLPENV-------VQNIVKEAVEVERSFICESLPCDLIGMNSRLMSQYIE 285
Query: 301 FIANCRMKQIGIKQIFPYERNPFPWMSEMIHIKKESNFFETRVMEYQSGGTLDWE 355
F+A+ ++ +G ++F +NPF WM ++I ++ ++NFFE RV +YQ G +
Sbjct: 286 FVADRLLECLGCSKVFH-SKNPFNWM-DLISLQGKTNFFEKRVADYQKSGVMAQR 338
>1h0o_A Ribonucleoside-diphosphate reductase; oxidoreductase,
ribonucleotide reductase, dinuclear metal-cluster; 2.2A
{Mus musculus} SCOP: a.25.1.2 PDB: 1h0n_A 1w68_A 1w69_A
1xsm_A 2uw2_A 3hf1_A 2vux_A
Length = 390
Score = 349 bits (898), Expect = e-119
Identities = 83/355 (23%), Positives = 165/355 (46%), Gaps = 28/355 (7%)
Query: 4 KLNNKKKTLKINSFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEIN 63
++ L+ + + ++ ++ + + P +Y+ W Y + A+ W +E++
Sbjct: 50 RIFQDSAELESKAPTNPSVEDEPLLRENPRRFVVFPIEYHDIWQMYKKAEASFWTAEEVD 109
Query: 64 MQRDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQ 123
+ +DI+ W+ L +ER + L FF+ +D + N+V + + E R + Q
Sbjct: 110 LSKDIQHWEA---LKPDERHFISHVLAFFAASDGIVNENLVERFSQEVQVTEARCFYGFQ 166
Query: 124 AFEEAIHTHAYQYIVESLGLDELE---IFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTG 180
E IH+ Y ++++ D E +FNA + ++ K ++ + +I
Sbjct: 167 IAMENIHSEMYSLLIDTYIKDPKEREYLFNAIETMPCVKKKADWALRWIG---------- 216
Query: 181 NTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNF 240
+ + ++ FA + EG+FF F I L ++ M G + + I RDE +HC+F
Sbjct: 217 --DKEATYGERVVAFAAV-EGIFFSGSFASIFWLKKRGLMPGLTFSNELISRDEGLHCDF 273
Query: 241 GIDLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLR 300
+ +L + + ++ A+ +E + + +P ++G+N K Y+
Sbjct: 274 ACLMFK-------HLVHKPAEQRVREIITNAVRIEQEFLTEALPVKLIGMNCTLMKQYIE 326
Query: 301 FIANCRMKQIGIKQIFPYERNPFPWMSEMIHIKKESNFFETRVMEYQSGGTLDWE 355
F+A+ M ++G +IF E NPF +M E I ++ ++NFFE RV EYQ G +
Sbjct: 327 FVADRLMLELGFNKIFRVE-NPFDFM-ENISLEGKTNFFEKRVGEYQRMGVMSNS 379
>1jk0_A RNR Y2, ribonucleoside-diphosphate reductase small chain 1;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1smq_A
Length = 419
Score = 335 bits (861), Expect = e-113
Identities = 96/332 (28%), Positives = 158/332 (47%), Gaps = 27/332 (8%)
Query: 24 NKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERR 83
+ ++N + L P KY+ W Y + A+ W +EI++ +DI W N + E ER
Sbjct: 95 EEPLLNEDKERTVLFPIKYHEIWQAYKRAEASFWTAEEIDLSKDIHDWNN--RMNENERF 152
Query: 84 LVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGL 143
+ R L FF+ +D + N+V + PE + + Q E IH+ Y ++++
Sbjct: 153 FISRVLAFFAASDGIVNENLVENFSTEVQIPEAKSFYGFQIMIENIHSETYSLLIDTYIK 212
Query: 144 DELE---IFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIME 200
D E +FNA H I I +K E+ + +I D + L+ FA I E
Sbjct: 213 DPKESEFLFNAIHTIPEIGEKAEWALRWIQ------------DADALFGERLVAFASI-E 259
Query: 201 GLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEF 260
G+FF F I L ++ M G + + I RDE +H +F L +K +
Sbjct: 260 GVFFSGSFASIFWLKKRGMMPGLTFSNELICRDEGLHTDFACLLFAHLKNKPDP------ 313
Query: 261 CKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFPYER 320
+E++ +A+E+E Y D +P +LG+N Y+ F+A+ + G K+ + E
Sbjct: 314 -AIVEKIVTEAVEIEQRYFLDALPVALLGMNADLMNQYVEFVADRLLVAFGNKKYYKVE- 371
Query: 321 NPFPWMSEMIHIKKESNFFETRVMEYQSGGTL 352
NPF +M E I + ++NFFE RV +YQ G +
Sbjct: 372 NPFDFM-ENISLAGKTNFFEKRVSDYQKAGVM 402
>4dr0_A Ribonucleoside-diphosphate reductase subunit beta; ribonucleotide
reductase, manganese, oxidoreductase; 1.90A {Bacillus
subtilis}
Length = 350
Score = 332 bits (853), Expect = e-113
Identities = 71/336 (21%), Positives = 127/336 (37%), Gaps = 20/336 (5%)
Query: 24 NKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERR 83
++ D + ++ Y + W+P+EI + D+ WK L + E+
Sbjct: 18 GSHMMTKIYDAANWSKHEDDFTQMFYNQNVKQFWLPEEIALNGDLLTWKY---LGKNEQD 74
Query: 84 LVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAF-EEAIHTHAYQYIVESLG 142
+ L + D+ N + H+ + + L A E A+H +Y I +L
Sbjct: 75 TYMKVLAGLTLLDTEQGNTGMPIVAEHVDGHQRKAVLNFMAMMENAVHAKSYSNIFMTLA 134
Query: 143 LDEL--EIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIME 200
E E+F + K ++ K + ++ K+D+ L +V + +E
Sbjct: 135 PTETINEVFEWVKQNKYLQKKAQMIVGLYK---------AIQKDDEISLFKAMVASVYLE 185
Query: 201 GLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEF 260
FY GF L Q K++ S E+ ILRDE++H + L I + E
Sbjct: 186 SFLFYSGFYYPLYFYGQGKLMQSGEIINLILRDEAIHGVYVGLLAQEIYNKQTEEKKAEL 245
Query: 261 CKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFP-YE 319
+ L + E E Y ED +GL+ K ++R+ AN + +G F +
Sbjct: 246 REFAIDLLNQLYENELEYTEDLYD--QVGLS-HDVKKFIRYNANKALMNLGFDPYFEEED 302
Query: 320 RNPFPWMSEMIHIKKESNFFETRVMEYQSGGTLDWE 355
NP + K +FF + Y+ +
Sbjct: 303 INPIVLN-GLNTKTKSHDFFSMKGNGYKKATVEPLK 337
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 331 bits (851), Expect = e-113
Identities = 67/356 (18%), Positives = 128/356 (35%), Gaps = 38/356 (10%)
Query: 5 LNNKKKTLKINSFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINM 64
++N+ N + + IN N + + + N W+P++I +
Sbjct: 1 MSNEYDEYIANHTDPVKAIN---------WNVI---PDEKDLEVWDRLTGNFWLPEKIPV 48
Query: 65 QRDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQA 124
DI+ W +T +E+ R + D++ + A
Sbjct: 49 SNDIQSWNK---MTPQEQLATMRVFTGLTLLDTIQGTVGAISLLPDAETMHEEAVYTNIA 105
Query: 125 FEEAIHTHAYQYIVESLGLDE--LEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNT 182
F E++H +Y I +L E F E ++++ K + ++ + +
Sbjct: 106 FMESVHAKSYSNIFMTLASTPQINEAFRWSEENENLQRKAKIIMSYYN------------ 153
Query: 183 KNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGI 242
LK V + ++E FY GF + L + K+ ++++ + I+RDES+H +
Sbjct: 154 --GDDPLKKK-VASTLLESFLFYSGFYLPMYLSSRAKLTNTADIIRLIIRDESVHGYYIG 210
Query: 243 DLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFI 302
+ E+ L E E Y ED LG + K +LR+
Sbjct: 211 YKYQQGVKKLSEAEQEEYKAYTFDLMYDLYENEIEYTEDIYD--DLGWT-EDVKRFLRYN 267
Query: 303 ANCRMKQIGIKQIFPYER---NPFPWMSEMIHIKKESNFFETRVMEYQSGGTLDWE 355
AN + +G + +FP + +P S + + +FF Y G D
Sbjct: 268 ANKALNNLGYEGLFPTDETKVSPAILSSLSPNADENHDFFSGSGSSYVIGKAEDTT 323
>1jk0_B RNR Y4, ribonucleoside-diphosphate reductase small chain 2;
ribonucleotide reductase, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: a.25.1.2 PDB: 1sms_A
Length = 345
Score = 327 bits (839), Expect = e-111
Identities = 70/332 (21%), Positives = 146/332 (43%), Gaps = 27/332 (8%)
Query: 24 NKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERR 83
++ ++ ++ + P KY+ W Y A+ W +EI + +D E ++ LT++++
Sbjct: 24 DEILLMENSRRFVMFPIKYHEIWAAYKKVEASFWTAEEIELAKDTEDFQK---LTDDQKT 80
Query: 84 LVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGL 143
+ L ++D+L ++ + PE + + Q E I++ Y +V++
Sbjct: 81 YIGNLLALSISSDNLVNKYLIENFSAQLQNPEGKSFYGFQIMMENIYSEVYSMMVDAFFK 140
Query: 144 D--ELEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEG 201
D + +F + ++ K F+ +I ND L +V EG
Sbjct: 141 DPKNIPLFKEIANLPEVKHKAAFIERWIS-------------NDDSLYAERLVAFAAKEG 187
Query: 202 LFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEFC 261
+F + + L + M G + + I RD + +F L L T
Sbjct: 188 IFQAGNYASMFWLTDKKIMPGLAMANRNICRDRGAYTDFSCLLFAH-------LRTKPNP 240
Query: 262 KEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFPYERN 321
K IE++ +A+E+E Y +++P G+++K+ +Y+ F+A+ ++ G ++ + N
Sbjct: 241 KIIEKIITEAVEIEKEYYSNSLPVEKFGMDLKSIHTYIEFVADGLLQGFGNEK-YYNAVN 299
Query: 322 PFPWMSEMIHIKKESNFFETRVMEYQSGGTLD 353
PF +M ++ K + FFE +V +YQ +
Sbjct: 300 PFEFMEDVATAGK-TTFFEKKVSDYQKASDMS 330
>2o1z_A Ribonucleotide reductase subunit R2; small subunit ribonucleotide
reductase, oxidoreductase, DNA replication, iron,
DIIRON, radical, R2 subunit; 2.40A {Plasmodium vivax}
Length = 311
Score = 315 bits (809), Expect = e-107
Identities = 77/321 (23%), Positives = 152/321 (47%), Gaps = 23/321 (7%)
Query: 9 KKTLKINSFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDI 68
KK K + ++ + N++I++ TD L P Y WD Y + A+ W +EI++ D+
Sbjct: 14 KKEKKFSDLQKSKEANEKILSKETDRFTLYPILYPDVWDFYKKAEASFWTAEEIDLSSDL 73
Query: 69 ELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEA 128
+ ++ L + E+ +K L FF+ +D + N+ R + E +++ Q E
Sbjct: 74 KDFEK---LNDNEKHFIKHVLAFFAASDGIVLENLASKFLRQVKITEAKKFYAFQIAVEN 130
Query: 129 IHTHAYQYIVESLGLDELEIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKL 188
IH+ Y ++++ DE E N +H I++I ND
Sbjct: 131 IHSETYSLLIDNYIKDEKERMNLFHAIENIPAVKNK-----------ALWAAKWINDTNS 179
Query: 189 LKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTI 248
IV +EG+ F F I +QNK+ G + + I RDE +H +F + + +
Sbjct: 180 FAERIVANACVEGILFSGSFCAIFWFKKQNKLHGLTFSNELISRDEGLHTDFNCLIYSLL 239
Query: 249 KMENPNLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMK 308
+ + P + ++ + +A+E+E + +++P ++G+N + Y+ F+A+ ++
Sbjct: 240 ENKLPE-------EVVQNIVKEAVEVERSFICESLPCDLIGMNSRLMSQYIEFVADRLLE 292
Query: 309 QIGIKQIFPYERNPFPWMSEM 329
+G +IF + +NPF WM ++
Sbjct: 293 CLGSPKIF-HAKNPFNWM-DL 311
>3ee4_A Probable ribonucleoside-diphosphate reductase; manganese, iron,
DIIRON, carboxylate, oxidase, ligand, C monooxygenase;
HET: MYR; 1.90A {Mycobacterium tuberculosis}
Length = 323
Score = 298 bits (765), Expect = e-100
Identities = 59/325 (18%), Positives = 108/325 (33%), Gaps = 21/325 (6%)
Query: 32 TDVNQLVPFKYNWA---WDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERRLVKRN 88
T L NWA + A W P +I+ RD W+ L+++ER R
Sbjct: 13 TRSGSLAAGGLNWASLPLKLFAGGNAKFWHPADIDFTRDRADWEK---LSDDERDYATRL 69
Query: 89 LGFFSTADSLAANNI--VLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGLDEL 146
F + +I + R YL + AFEEA HT ++ ++++G+ E
Sbjct: 70 CTQFIAGEEAVTEDIQPFMSAMRAEGRLADEMYLTQFAFEEAKHTQVFRMWLDAVGISE- 128
Query: 147 EIFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEGLFFYV 206
++ ++ + R F L + + +++ + + I+EG+
Sbjct: 129 DLHRYLDDLPAYRQI------FYAELPECLNALSADPSPAAQVRASVTYNHIVEGMLALT 182
Query: 207 GFVQILALGRQ-NKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEFCKEIE 265
G+ + + + G EL + I DE H +G + W T F +
Sbjct: 183 GYYAWHKICVERAILPGMQELVRRIGDDERRHMAWGTFTCRRHVAADDANW-TVFETRMN 241
Query: 266 QLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFPYERNPFPW 325
+L A+ L + L+ F Y R I + P +
Sbjct: 242 ELIPLALRLIEEGFALYGDQPPFDLSKDDFLQYSTDKGMRRFGTISNARGRPVAEIDVDY 301
Query: 326 MSEMIHIKKESNFFETRVMEYQSGG 350
+ E F + +
Sbjct: 302 SPAQL----EDTFADEDRRTLAAAS 322
>3olj_A Ribonucleoside-diphosphate reductase subunit M2; metal-binding,
HRRM2, oxidoreductase; 2.10A {Homo sapiens}
Length = 286
Score = 293 bits (752), Expect = 6e-99
Identities = 69/310 (22%), Positives = 145/310 (46%), Gaps = 27/310 (8%)
Query: 20 INKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTE 79
+ ++ ++ + + P +Y+ W Y + A+ W +E+++ +DI+ W++ L
Sbjct: 1 MGVEDEPLLRENPRRFVIFPIEYHDIWQMYKKAEASFWTAEEVDLSKDIQHWES---LKP 57
Query: 80 EERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVE 139
EER + L FF+ +D + N+V + + E R + Q E IH+ Y +++
Sbjct: 58 EERYFISHVLAFFAASDGIVNENLVERFSQEVQITEARCFYGFQIAMENIHSEMYSLLID 117
Query: 140 SLGLDELE---IFNAYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFA 196
+ D E +FNA + ++ K ++ + +I + + ++ FA
Sbjct: 118 TYIKDPKEREFLFNAIETMPCVKKKADWALRWIG------------DKEATYGERVVAFA 165
Query: 197 CIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLW 256
+ EG+FF F I L ++ M G + + I RDE +HC+F + + +
Sbjct: 166 AV-EGIFFSGSFASIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLMFKHLVHKPSE-- 222
Query: 257 TTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIF 316
+ + ++ + A+ +E + + +P ++G+N K Y+ F+A+ M ++G ++F
Sbjct: 223 -----ERVREIIINAVRIEQEFLTEALPVKLIGMNCTLMKQYIEFVADRLMLELGFSKVF 277
Query: 317 PYERNPFPWM 326
E NPF +M
Sbjct: 278 RVE-NPFDFM 286
>3mjo_A Ribonucleotide reductase subunit R2F; Mn ribonucleotide reductase,
RNR, radical enzyme, split SIGN metallocofactor; 1.36A
{Corynebacterium ammoniagenes} PDB: 1uzr_A*
Length = 296
Score = 293 bits (752), Expect = 9e-99
Identities = 57/289 (19%), Positives = 108/289 (37%), Gaps = 24/289 (8%)
Query: 41 KYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAA 100
+ + N W+P++I + DI+ W +T +E+ R + D++
Sbjct: 24 PDEKDLEVWDRLTGNFWLPEKIPVSNDIQSWNK---MTPQEQLATMRVFTGLTLLDTIQG 80
Query: 101 NNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGLDEL--EIFNAYHEIKSI 158
+ AF E++H +Y I +L E F E +++
Sbjct: 81 TVGAISLLPDAETMHEEAVYTNIAFMESVHAKSYSNIFMTLASTPQINEAFRWSEENENL 140
Query: 159 RDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQN 218
+ K + ++ + + LK V + ++E FY GF + L +
Sbjct: 141 QRKAKIIMSYYN--------------GDDPLKKK-VASTLLESFLFYSGFYLPMYLSSRA 185
Query: 219 KMIGSSELYQYILRDESMHCNFGIDLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYYY 278
K+ ++++ + I+RDES+H + + E+ L E E Y
Sbjct: 186 KLTNTADIIRLIIRDESVHGYYIGYKYQQGVKKLSEAEQEEYKAYTFDLMYDLYENEIEY 245
Query: 279 AEDTMPKGILGLNVKTFKSYLRFIANCRMKQIGIKQIFP-YERNPFPWM 326
ED LG + K +LR+ AN + +G + +FP E P +
Sbjct: 246 TEDIYD--DLGWT-EDVKRFLRYNANKALNNLGYEGLFPTDETKVSPAI 291
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 54.1 bits (129), Expect = 4e-08
Identities = 42/318 (13%), Positives = 90/318 (28%), Gaps = 88/318 (27%)
Query: 5 LNNKKKTLKINSFERINKINKQIING-----HTDVNQLVPFKY--NWAWDRYLSSCANHW 57
L+ + + L + N + ++ + +K+ + S N
Sbjct: 311 LDCRPQDLP----REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 58 MPQEINMQR------------DIE------LWKNPIGLTEEE--RRLVKRNLGFFSTADS 97
P E ++ I +W + I +L K S
Sbjct: 367 EPAE--YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY---------S 415
Query: 98 LAANNIVLGTYR-HITAPECRQYLLRQAFEEAIHTH-----AYQ----YIVESLGLDELE 147
L T L+ E H Y + + L L+
Sbjct: 416 LVEKQPKESTISIPS-----IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 148 --IFN--AYHEIKSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIVFACIMEGLF 203
++ +H +K+I + + F V D +F +QK+ +
Sbjct: 471 QYFYSHIGHH-LKNIEHPERMTL-FRMVFLDFRFL------EQKIRHDSTAWNAS----- 517
Query: 204 FYVGFVQILALGRQNKMIGSSELY-QYILRDESMHCNFGIDLINTIKMENPNLWTTEFCK 262
G + + Y YI ++ + +++ + NL +++
Sbjct: 518 -----------GSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYT- 565
Query: 263 EIEQLFLKAIELEYYYAE 280
++ ++ L A E E + E
Sbjct: 566 DLLRIALMA-EDEAIFEE 582
Score = 43.3 bits (101), Expect = 1e-04
Identities = 42/334 (12%), Positives = 104/334 (31%), Gaps = 85/334 (25%)
Query: 34 VNQLVPFKYNWAWDRYLSSCANHWMPQEI-NMQRDIELWKNPIGLTEEERRLVKRNLGFF 92
V +++ Y + + M + QRD L+ + + K N+
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDN-------QVFAKYNVSRL 134
Query: 93 STADSL--------AANNIVL----GTYRHITAPE-CRQYLLRQAFEEAIH--THAYQYI 137
L A N+++ G+ + A + C Y ++ + I
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 138 VESLGLDELEIFNAYHEI-KSIRDKDEFLIPFIDVLTDLKFKTGNTKNDQKLLKSLIV-- 194
E++ L+ L+ ++I + + + + ++ + + L+V
Sbjct: 195 PETV-LEMLQ--KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 195 ------------FACIMEGLFFYVGFVQILALGRQNKMIGSSELYQYILRDESMHCNFGI 242
+C +IL R ++ ++ + H
Sbjct: 252 NVQNAKAWNAFNLSC------------KILLTTRF------KQVTDFLSAATTTH----- 288
Query: 243 DLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYY----YAEDTMPK--GILGLNVKTFK 296
I +++ ++ T E++ L LK ++ T P+ I+ +++
Sbjct: 289 -----ISLDHHSMTLTP--DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341
Query: 297 S---YLRFIANCRMKQI---GIKQIFPYE-RNPF 323
+ + + ++ I + + P E R F
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375
Score = 42.5 bits (99), Expect = 2e-04
Identities = 35/248 (14%), Positives = 82/248 (33%), Gaps = 57/248 (22%)
Query: 66 RDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITAPECRQYLLRQAF 125
+D++ I L++EE + + + + V GT R +Q + Q F
Sbjct: 36 KDVQDMPKSI-LSKEE---ID---------HIIMSKDAVSGTLRLFWTLLSKQEEMVQKF 82
Query: 126 EEAIHTHAYQYIVESLGLD------ELEIFNAYHEIKSIRDKDEFL---IPFIDVLTDLK 176
E + Y++++ + + ++ + + D F + + L+
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 177 FKTGNTKNDQKLLKSLIVFACIMEGLFFYVGFVQILALGRQNKMIGS--SELYQYILRDE 234
+ L L + + G ++GS + + +
Sbjct: 142 ----------QALLELRP----AKNVLID-G------------VLGSGKTWVALDVCLSY 174
Query: 235 SMHCNFGIDLINTIKMENPNLWTTEFCKEIEQLFLKAIELEYYYAEDTMPKGILGLNVKT 294
+ C I + ++N N + E E+ Q L I+ + D L ++ +
Sbjct: 175 KVQCKMD-FKIFWLNLKNCN--SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--S 229
Query: 295 FKSYLRFI 302
++ LR +
Sbjct: 230 IQAELRRL 237
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.8 bits (76), Expect = 0.033
Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 265 EQLFLKAIE--LEYYYAEDTMPKGILGLN 291
E+ LK ++ L+ Y A+D+ P L +
Sbjct: 18 EKQALKKLQASLKLY-ADDSAPA--LAIK 43
>1or4_A Heme-based aerotactic transducer hemat; globin fold, signaling
protein; HET: HEM; 2.15A {Bacillus subtilis} SCOP:
a.1.1.2 PDB: 1or6_A*
Length = 178
Score = 29.5 bits (66), Expect = 1.1
Identities = 11/81 (13%), Positives = 28/81 (34%), Gaps = 5/81 (6%)
Query: 60 QEINMQRDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITA-PECRQ 118
Q N D++ + L + E ++++ NIV Y+++
Sbjct: 26 QLTNKHADVKKQLKMVRLGDAELYVLEQLQPLIQE----NIVNIVDAFYKNLDHESSLMD 81
Query: 119 YLLRQAFEEAIHTHAYQYIVE 139
+ + + + ++I E
Sbjct: 82 IINDHSSVDRLKQTLKRHIQE 102
>1qd1_A Formiminotransferase-cyclodeaminase; functional dimer,
alpha-beta-BETA-alpha sandwich, electrosta charged
substrate tunnel; HET: FON; 1.70A {Sus scrofa} SCOP:
d.58.34.1 d.58.34.1
Length = 325
Score = 29.3 bits (65), Expect = 1.8
Identities = 10/40 (25%), Positives = 14/40 (35%)
Query: 116 CRQYLLRQAFEEAIHTHAYQYIVESLGLDELEIFNAYHEI 155
Y ++ H + +V LGLD L F I
Sbjct: 281 AAFYCEKENLFLLQDEHRIRLVVNRLGLDSLAPFKPKERI 320
>3oql_A TENA homolog; transcriptional activator, structural genomics, joint
center structural genomics, JCSG, protein structure
initiative; 2.54A {Pseudomonas syringae PV}
Length = 262
Score = 29.4 bits (65), Expect = 1.9
Identities = 10/57 (17%), Positives = 20/57 (35%)
Query: 95 ADSLAANNIVLGTYRHITAPECRQYLLRQAFEEAIHTHAYQYIVESLGLDELEIFNA 151
A +A N RH R++L+R E H + + + ++ +
Sbjct: 70 AVYMAKNLTKTRFGRHPGEDMARRWLMRNIRVELNHADYWVNWCAAHDVTLEDLHDQ 126
>2htd_A Predicted flavin-nucleotide-binding protein from family
structurally related to pyridoxine...; putative
pyridoxamine 5'-phosphate oxidase; HET: MSE; 1.60A
{Lactobacillus delbrueckii subsp}
Length = 140
Score = 27.8 bits (62), Expect = 2.7
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 77 LTEEERRLVKRNLGFFSTAD 96
LTEE+ L K NL + +T D
Sbjct: 28 LTEEQVNLFKNNLVYLATVD 47
>1bin_A Leghemoglobin A; heme, nitrogen fixation, multigene family, oxygen
transport; HET: HEM; 2.20A {Glycine max} SCOP: a.1.1.2
PDB: 1fsl_A*
Length = 143
Score = 27.2 bits (60), Expect = 5.4
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 10/49 (20%)
Query: 75 IGLTEEERRLVKRNLGFFSTADSLAANNIVLGT--YRHI--TAPECRQY 119
+ TE++ LV S+ ++ AN Y I AP +
Sbjct: 1 VAFTEKQDALVS------SSFEAFKANIPQYSVVFYTSILEKAPAAKDL 43
>3trb_A Virulence-associated protein I; mobIle and extrachromosomal
element functions, DNA binding P; 2.00A {Coxiella
burnetii}
Length = 104
Score = 26.6 bits (59), Expect = 5.4
Identities = 8/71 (11%), Positives = 22/71 (30%), Gaps = 12/71 (16%)
Query: 16 SFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWKNPI 75
R+ I+NG + + ++ + W+ N+Q ++
Sbjct: 40 PTNRVT----AILNGARSITADTALR----LAKFFGTTPEFWL----NLQDAYDIKMALK 87
Query: 76 GLTEEERRLVK 86
++ + V
Sbjct: 88 KSGKKIEKEVT 98
>2w31_A Globin; oxygen transport, hexacoordination; HET: HEM; 1.50A
{Geobacter sulfurreducens}
Length = 162
Score = 27.1 bits (60), Expect = 5.4
Identities = 10/75 (13%), Positives = 23/75 (30%), Gaps = 5/75 (6%)
Query: 66 RDIELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGTYRHITA-PECRQYLLRQA 124
++ K T+E+ L+ T + Y ++ PE ++L
Sbjct: 2 LTMQEIKAHYRFTDEDAELLGSLFPLAET----NKERLADQFYDYLLGIPETAEFLKEDL 57
Query: 125 FEEAIHTHAYQYIVE 139
+ + + V
Sbjct: 58 VLQKLKQTHQDWFVS 72
>1hlm_A Hemoglobin (cyano Met); oxygen transport; HET: HEM; 2.90A {Caudina
arenicola} SCOP: a.1.1.2
Length = 159
Score = 27.1 bits (60), Expect = 6.9
Identities = 14/97 (14%), Positives = 30/97 (30%), Gaps = 24/97 (24%)
Query: 69 ELWKNPIGLTEEERRLVKRNLGFFSTADSLAANNIVLGT--YRHI--TAPECRQY----- 119
+ +++ LT E+ L++ ST D L + + I P ++
Sbjct: 5 QSFQSVGDLTPAEKDLIR------STWDQLMTHRTGFVADVFIRIFHNDPTAQRKFPQMA 58
Query: 120 ---LLRQAFEEAIHTHA------YQYIVESLGLDELE 147
+H HA ++ + + L
Sbjct: 59 GLSPAELRTSRQMHAHAIRVSALMTTYIDEMDTEVLP 95
>1gc5_A ADP-dependent glucokinase; ALFA/beta sandwichs, induced-fitting,
transferase; HET: ADP; 2.30A {Thermococcus litoralis}
SCOP: c.72.1.3
Length = 467
Score = 27.7 bits (61), Expect = 7.0
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 137 IVESLGLDELEIFNAYHEIKSIRDKDEFLIPFIDVLTD 174
S+GL+E+E+ + I E L I + D
Sbjct: 298 KFTSVGLNEVELASIMEIIGDEELAKEVLEGHIFSVID 335
>2pg3_A Queuosine biosynthesis protein QUEC; YP_049261.1, hypothetical
protein, structural genomics, JOIN for structural
genomics; 2.40A {Pectobacterium atrosepticum SCRI1043}
SCOP: c.26.2.1
Length = 232
Score = 26.9 bits (60), Expect = 9.0
Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 87 RNLGFFSTADSLA----ANNIVLGTYR--HITAPECRQYLLRQAFEEAI 129
RN+ F + A A A ++ G P+CR + +A +AI
Sbjct: 100 RNILFLTLASIYAYQVGAEAVITGVCETDFSGYPDCRDEFV-KALNQAI 147
>2eby_A Putative HTH-type transcriptional regulator YBAQ; hypothetical
protein, JW0472, structural genomics, NPPSFA; 2.25A
{Escherichia coli}
Length = 113
Score = 25.9 bits (57), Expect = 9.2
Identities = 8/57 (14%), Positives = 23/57 (40%), Gaps = 12/57 (21%)
Query: 16 SFERINKINKQIINGHTDVNQLVPFKYNWAWDRYLSSCANHWMPQEINMQRDIELWK 72
++ + IN + + + F+ + + + W+ N+Q ++LW+
Sbjct: 37 HRNSVSAL----INNNRKLTTEMAFR----LAKVFDTTVDFWL----NLQAAVDLWE 81
>1sct_A Hemoglobin II (carbonmonoxy) (alpha chain); oxygen transport; HET:
HEM; 2.00A {Scapharca inaequivalvis} SCOP: a.1.1.2
Length = 150
Score = 26.4 bits (58), Expect = 9.7
Identities = 6/49 (12%), Positives = 18/49 (36%), Gaps = 10/49 (20%)
Query: 75 IGLTEEERRLVKRNLGFFSTADSLAANNIVLGT--YRHI--TAPECRQY 119
+ +E + ++ + L+A+ G ++ P+ + Y
Sbjct: 9 VCGSEAIKANLR------RSWGVLSADIEATGLMLMSNLFTLRPDTKTY 51
>1gdj_A Leghemoglobin (deoxy); oxygen transport; HET: HEM; 1.70A {Lupinus
luteus} SCOP: a.1.1.2 PDB: 1gdi_A* 1gdk_A* 1gdl_A*
1lh1_A* 1lh2_A* 1lh3_A* 1lh5_A* 1lh6_A* 1lh7_A* 2gdm_A*
2lh1_A* 2lh2_A* 2lh3_A* 2lh5_A* 2lh6_A* 2lh7_A*
Length = 153
Score = 26.5 bits (58), Expect = 10.0
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 10/48 (20%)
Query: 76 GLTEEERRLVKRNLGFFSTADSLAANNIVLGT--YRHI--TAPECRQY 119
LTE + LVK S+ + AN + + AP +
Sbjct: 2 ALTESQAALVK------SSWEEFNANIPKHTHRFFILVLEIAPAAKDL 43
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.323 0.139 0.421
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,570,399
Number of extensions: 332159
Number of successful extensions: 950
Number of sequences better than 10.0: 1
Number of HSP's gapped: 870
Number of HSP's successfully gapped: 36
Length of query: 355
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 260
Effective length of database: 4,049,298
Effective search space: 1052817480
Effective search space used: 1052817480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.2 bits)